BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 000539
(1433 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 97.8 bits (242), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 63/179 (35%), Positives = 95/179 (53%), Gaps = 7/179 (3%)
Query: 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRY 961
L +V W +V+DEAQ+IKN +T++ +A L++K R L+GTPI+N +DDL+S FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNP 204
Query: 962 DPFAVYKSFCSMIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIML 1021
Y F S PI K ++L+A++ +LRRTK D I +LP K+
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNMAKEELKAIISPFILRRTK---YDKAIINDLPDKIETN 261
Query: 1022 KQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKG 1080
+ T E+ Y + F + +K+ + IL LL+L+Q DHP L+KG
Sbjct: 262 VYCNLTPEQAAMYKA---EVENLFNNIDSVTGIKRKGM-ILSTLLKLKQIVDHPALLKG 316
Score = 89.4 bits (220), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 73/129 (56%), Gaps = 1/129 (0%)
Query: 1278 GEKAIVFSQWTKMLDLLEASL-KDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS 1336
G+K +F+Q+ M ++ + K+ + + L G +S RD + F P V +++S
Sbjct: 341 GDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLS 400
Query: 1337 LKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRIL 1396
+KA G+N+ +A V+ D WWNP EDQA DR +RIGQTR V V +L T+E++I
Sbjct: 401 VKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKID 460
Query: 1397 ALQQKKREM 1405
L KR +
Sbjct: 461 QLLAFKRSL 469
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 10/71 (14%)
Query: 768 FVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGS--LSVLVYHGSSRTKDPCELAK 825
F + K +LV+CP SVL+ W EEL SK + L V+H R+K +L
Sbjct: 77 FSDAKKENELTPSLVICPLSVLKNWEEEL-----SKFAPHLRFAVFH-EDRSK--IKLED 128
Query: 826 FDVVITTYSIV 836
+D+++TTY+++
Sbjct: 129 YDIILTTYAVL 139
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With
Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With
Dsdna
Length = 500
Score = 96.3 bits (238), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 63/179 (35%), Positives = 94/179 (52%), Gaps = 7/179 (3%)
Query: 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRY 961
L +V W +V+DEAQ+IKN +T++ +A L++K R L+GTPI+N +DDL+S FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIXTFLNP 204
Query: 962 DPFAVYKSFCSMIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIML 1021
Y F S PI K ++L+A++ +LRRTK D I +LP K+
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNXAKEELKAIISPFILRRTK---YDKAIINDLPDKIETN 261
Query: 1022 KQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKG 1080
+ T E+ Y + F + +K+ IL LL+L+Q DHP L+KG
Sbjct: 262 VYCNLTPEQAAXYKA---EVENLFNNIDSVTGIKRKG-XILSTLLKLKQIVDHPALLKG 316
Score = 87.4 bits (215), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 46/129 (35%), Positives = 72/129 (55%), Gaps = 1/129 (0%)
Query: 1278 GEKAIVFSQWTKMLDLLEASL-KDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS 1336
G+K +F+Q+ ++ + K+ + + L G +S RD + F P V +++S
Sbjct: 341 GDKIAIFTQFVDXGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLS 400
Query: 1337 LKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRIL 1396
+KA G+N+ +A V+ D WWNP EDQA DR +RIGQTR V V +L T+E++I
Sbjct: 401 VKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKID 460
Query: 1397 ALQQKKREM 1405
L KR +
Sbjct: 461 QLLAFKRSL 469
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 10/71 (14%)
Query: 768 FVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGS--LSVLVYHGSSRTKDPCELAK 825
F + K +LV+CP SVL+ W EEL SK + L V+H R+K +L
Sbjct: 77 FSDAKKENELTPSLVICPLSVLKNWEEEL-----SKFAPHLRFAVFH-EDRSK--IKLED 128
Query: 826 FDVVITTYSIV 836
+D+++TTY+++
Sbjct: 129 YDIILTTYAVL 139
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of The
Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 95.5 bits (236), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 52/131 (39%), Positives = 80/131 (61%), Gaps = 3/131 (2%)
Query: 1274 IKLGGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVS-- 1331
+K G + ++FSQ +MLD+L L I ++RLDGT+ R ++ FN+ P+ +
Sbjct: 568 LKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNS-PDSNDF 626
Query: 1332 VMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTV 1391
V ++S +A LG+N++ A V++ D WNP + QA+ RAHRIGQ V V RL K+TV
Sbjct: 627 VFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTV 686
Query: 1392 EDRILALQQKK 1402
E+ +L +KK
Sbjct: 687 EEEVLERARKK 697
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 43/178 (24%), Positives = 80/178 (44%), Gaps = 17/178 (9%)
Query: 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRY 961
L + W + +DEA +KN + + + + R ++GTP+QN I +L + FL
Sbjct: 363 LGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMP 422
Query: 962 DPFAVYKSFCSMIKVPISKNPVKGY-KKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIM 1020
F + + I + Y L ++ +LRR K D E +LP K
Sbjct: 423 GRFTIDQE----IDFENQDEEQEEYIHDLHRRIQPFILRRLKK---DVEK--SLPSKTER 473
Query: 1021 LKQVDFTDEERDFYSQLEINSRDQFKEYAA-AGTVKQNYVNILLMLLRLRQACDHPLL 1077
+ +V+ +D + ++Y + K Y+A K + ++L ++ L++A +HP L
Sbjct: 474 ILRVELSDVQTEYYKNILT------KNYSALTAGAKGGHFSLLNIMNELKKASNHPYL 525
Score = 33.5 bits (75), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 7/41 (17%)
Query: 671 QRIALSWMVQKETSSLHCSG--GILADDQGLGKTISTIALI 709
Q ++WM + L G GILAD+ GLGKT+ T+A I
Sbjct: 241 QLTGINWM-----AFLWSKGDNGILADEMGLGKTVQTVAFI 276
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 90.1 bits (222), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 52/155 (33%), Positives = 85/155 (54%), Gaps = 5/155 (3%)
Query: 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFN--TLPEVSVMIMS 1336
+K ++ S +T+ LDL E ++ Y RLDGTMS+ R K V+ FN + PE + ++S
Sbjct: 417 DKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEF-IFMLS 475
Query: 1337 LKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRIL 1396
KA GLN++ A +++ D WNP ++QA+ R R GQ + + RL T+E++IL
Sbjct: 476 SKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKIL 535
Query: 1397 ALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLF 1431
Q K+ + + DE + ++ +L LF
Sbjct: 536 QRQAHKKALSSCVV--DEEQDVERHFSLGELRELF 568
Score = 48.5 bits (114), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 55/121 (45%), Gaps = 14/121 (11%)
Query: 903 AKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYD 962
KVG V+ DE +KN Q A + A+RR +SGTPIQN + + +S F+
Sbjct: 191 GKVGL--VICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSG 248
Query: 963 PFAVYKSFCSMIKVPI---------SKNPVKGYKKLQAVLKTI---MLRRTKGTLLDGEP 1010
+ F ++PI K+ G +KLQ ++ + ++RRT L P
Sbjct: 249 ILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLP 308
Query: 1011 I 1011
+
Sbjct: 309 V 309
Score = 32.0 bits (71), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 30/60 (50%), Gaps = 5/60 (8%)
Query: 660 DGVLAVPLLRHQR--IALSWMVQKETSSLHCSGGILADDQGLGKTISTIALI---LKERP 714
D VL+ L HQR + W + G I+AD+ GLGKT+ I LI LK+ P
Sbjct: 49 DPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSP 108
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 90.1 bits (222), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 73/129 (56%), Gaps = 1/129 (0%)
Query: 1278 GEKAIVFSQWTKMLDLLEASL-KDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS 1336
G+K +F+Q+ M ++ + K+ + + L G +S RD + F P V +++S
Sbjct: 112 GDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLS 171
Query: 1337 LKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRIL 1396
+KA G+N+ +A V+ D WWNP EDQA DR +RIGQTR V V +L T+E++I
Sbjct: 172 VKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKID 231
Query: 1397 ALQQKKREM 1405
L KR +
Sbjct: 232 QLLAFKRSL 240
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 42.0 bits (97), Expect = 0.003, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 1096 KLPQERQMYLLNC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTR 1154
K+ QE+ Y L C + ++ +C IC + +D + CGH+ C C+ +D CP
Sbjct: 10 KVTQEQ--YELXCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFC 67
Query: 1155 NCKIR 1159
C+I+
Sbjct: 68 RCEIK 72
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 41.2 bits (95), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 1096 KLPQERQMYLLNC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTR 1154
K+ QE+ Y L C + ++ +C IC + +D + CGH+ C C+ +D CP
Sbjct: 322 KVTQEQ--YELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFC 379
Query: 1155 NCKIR 1159
C+I+
Sbjct: 380 RCEIK 384
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 40.0 bits (92), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 1096 KLPQERQMYLLNC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTR 1154
K+ QE+ Y L C + ++ +C IC + +D + CGH+ C C+ ++ CP
Sbjct: 318 KVTQEQ--YELXCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
Query: 1155 NCKIR 1159
C+I+
Sbjct: 376 RCEIK 380
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 39.7 bits (91), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 1101 RQMYLLNC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159
++ Y L C + ++ +C IC + +D + CGH+ C C+ ++ CP C+I+
Sbjct: 319 QEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378
>pdb|2Y1M|A Chain A, Structure Of Native C-Cbl
pdb|2Y1M|B Chain B, Structure Of Native C-Cbl
pdb|2Y1M|C Chain C, Structure Of Native C-Cbl
pdb|2Y1M|D Chain D, Structure Of Native C-Cbl
pdb|2Y1M|E Chain E, Structure Of Native C-Cbl
pdb|2Y1M|F Chain F, Structure Of Native C-Cbl
pdb|2Y1N|A Chain A, Structure Of C-Cbl-Zap-70 Peptide Complex
pdb|2Y1N|C Chain C, Structure Of C-Cbl-Zap-70 Peptide Complex
Length = 389
Score = 39.7 bits (91), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 1101 RQMYLLNC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159
++ Y L C + ++ +C IC + +D + CGH+ C C+ ++ CP C+I+
Sbjct: 319 QEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 38.5 bits (88), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 1096 KLPQERQMYLLNC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTR 1154
K+ QE+ + L C + ++ +C IC + +D + CGH+ C C+ ++ CP
Sbjct: 318 KVTQEQ--FELXCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
Query: 1155 NCKIR 1159
C+I+
Sbjct: 376 RCEIK 380
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 38.5 bits (88), Expect = 0.027, Method: Composition-based stats.
Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 3/65 (4%)
Query: 1096 KLPQERQMYLLNC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTR 1154
K+ QE+ + L C + ++ +C IC + +D + CGH+ C C+ ++ CP
Sbjct: 11 KVTQEQ--FELXCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 68
Query: 1155 NCKIR 1159
C+I+
Sbjct: 69 RCEIK 73
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT Recycles
Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT Recycles
Rna Polymerase During Transcription
Length = 968
Score = 36.2 bits (82), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 33/70 (47%)
Query: 1313 SVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAH 1372
S+ RD+A F + +++ + S G N A H + DL +NP +Q I R
Sbjct: 539 SIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLD 598
Query: 1373 RIGQTRPVSV 1382
RIGQ + +
Sbjct: 599 RIGQAHDIQI 608
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1
Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
Length = 118
Score = 35.8 bits (81), Expect = 0.17, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRN 1155
C IC +AV + CGH FC CI + + ++CP N
Sbjct: 21 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 35.8 bits (81), Expect = 0.18, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRN 1155
C IC +AV + CGH FC CI + + ++CP N
Sbjct: 9 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 48
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 35.4 bits (80), Expect = 0.22, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRN 1155
C IC +AV + CGH FC CI + + ++CP N
Sbjct: 21 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 34.7 bits (78), Expect = 0.36, Method: Composition-based stats.
Identities = 22/55 (40%), Positives = 29/55 (52%), Gaps = 8/55 (14%)
Query: 1111 ASLAICGICNDPPEDAV------VSI-CGHVFCNQCICERLTADDNQCPTRNCKI 1158
++ C IC D + V VS CGHVFC+QC+ + L + N CPT KI
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKI 54
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 34.7 bits (78), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 1/60 (1%)
Query: 1101 RQMYLLNC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159
++ Y L C + ++ +C IC + +D + CGH+ C C+ ++ CP C+I+
Sbjct: 11 QEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 70
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 34.3 bits (77), Expect = 0.55, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 8/50 (16%)
Query: 1116 CGICNDPPEDAV-------VSICGHVFCNQCICERLTADDNQCPTRNCKI 1158
C IC D + V + CGHVFC+QC+ + L + N CPT KI
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKI 61
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 34.3 bits (77), Expect = 0.56, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 8/50 (16%)
Query: 1116 CGICNDPPEDAV-------VSICGHVFCNQCICERLTADDNQCPTRNCKI 1158
C IC D + V + CGHVFC+QC+ + L + N CPT KI
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKI 58
Score = 34.3 bits (77), Expect = 0.56, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 8/50 (16%)
Query: 1116 CGICNDPPEDAV-------VSICGHVFCNQCICERLTADDNQCPTRNCKI 1158
C IC D + V + CGHVFC+QC+ + L + N CPT KI
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKI 123
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 32.7 bits (73), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRN 1155
C IC +AV + CGH FC CI + + ++CP N
Sbjct: 28 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 67
>pdb|3ZTG|A Chain A, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
pdb|3ZTG|B Chain B, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
Length = 92
Score = 31.6 bits (70), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 26/41 (63%), Gaps = 2/41 (4%)
Query: 1115 ICGICNDPPEDAVV-SICGHVFCNQCI-CERLTADDNQCPT 1153
+C IC D DAVV CG+ +C++CI L +D++ CPT
Sbjct: 15 LCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPT 55
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 31.2 bits (69), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 1115 ICGICNDPPEDAVVSI-CGHVFCNQCICERLTADDNQCPTRNCKIRL 1160
+C IC D ++ + + C H FC CI L + + +CPT C+ +L
Sbjct: 56 MCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPT--CRKKL 100
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From Tripartite
Motif-containing Protein 31
Length = 63
Score = 30.8 bits (68), Expect = 5.5, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 1115 ICGICNDPPEDAVVSICGHVFCNQCICE 1142
IC IC D + V CGH FC +CI +
Sbjct: 22 ICPICLDILQKPVTIDCGHNFCLKCITQ 49
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From Tripartite
Motif-containing Protein 31
Length = 73
Score = 30.8 bits (68), Expect = 5.7, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 1115 ICGICNDPPEDAVVSICGHVFCNQCICE 1142
IC IC D + V CGH FC +CI +
Sbjct: 22 ICPICLDILQKPVTIDCGHNFCLKCITQ 49
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1 And
Ip6
Length = 188
Score = 30.4 bits (67), Expect = 6.9, Method: Composition-based stats.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 8/100 (8%)
Query: 1281 AIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAA 1340
+I+F K ++L LK + L G + RD+ + DF S ++++
Sbjct: 39 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFRE--GRSKVLITTNVL 96
Query: 1341 SLGLNMVAACHVLLLDLWWNPTTEDQAIDRA---HRIGQT 1377
+ G+++ V+ DL PT + D A HRIG+T
Sbjct: 97 ARGIDIPTVSXVVNYDL---PTLANGQADPATYIHRIGRT 133
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 30.4 bits (67), Expect = 7.3, Method: Composition-based stats.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 8/100 (8%)
Query: 1281 AIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAA 1340
+I+F K ++L LK + L G + RD+ + DF S ++++
Sbjct: 40 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFRE--GRSKVLITTNVL 97
Query: 1341 SLGLNMVAACHVLLLDLWWNPTTEDQAIDRA---HRIGQT 1377
+ G+++ V+ DL PT + D A HRIG+T
Sbjct: 98 ARGIDIPTVSXVVNYDL---PTLANGQADPATYIHRIGRT 134
>pdb|2WRH|I Chain I, Structure Of H1 Duck Albert Hemagglutinin With Human
Receptor
pdb|2WRH|K Chain K, Structure Of H1 Duck Albert Hemagglutinin With Human
Receptor
pdb|2WRH|M Chain M, Structure Of H1 Duck Albert Hemagglutinin With Human
Receptor
Length = 222
Score = 30.4 bits (67), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 502 NGSRQYFPYAQPSTLNKKELDGVK 525
NG+ Y Y++ S LN++E+DGVK
Sbjct: 154 NGTYDYPKYSEESKLNREEIDGVK 177
>pdb|2WRG|I Chain I, Structure Of H1 1918 Hemagglutinin With Human Receptor
pdb|2WRG|K Chain K, Structure Of H1 1918 Hemagglutinin With Human Receptor
pdb|2WRG|M Chain M, Structure Of H1 1918 Hemagglutinin With Human Receptor
Length = 222
Score = 30.4 bits (67), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 502 NGSRQYFPYAQPSTLNKKELDGVK 525
NG+ Y Y++ S LN++E+DGVK
Sbjct: 154 NGTYDYPKYSEESKLNREEIDGVK 177
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 30.0 bits (66), Expect = 8.8, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTA 1146
C IC ++ VV+ C H FC C E A
Sbjct: 18 CFICRQAFQNPVVTKCRHYFCESCALEHFRA 48
>pdb|2NV9|A Chain A, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|B Chain B, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|C Chain C, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|D Chain D, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|E Chain E, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|F Chain F, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|G Chain G, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
pdb|2NV9|H Chain H, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase
Length = 372
Score = 30.0 bits (66), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%)
Query: 166 HFLDHRNTLDFGVLGAKAGIRFGHVGSHIDSRSVDASPSSITENFDERYGHYGASIGNRL 225
H L++ LD V+G + G R++ +S + E + Y IG L
Sbjct: 158 HLLEYAKQLDIEVIGISFHVGSGSRNPEAYYRAIKSSKEAFNEAISVGHKPYILDIGGGL 217
Query: 226 GSSVPEGNLCTYVDVPYTDA 245
+ + EG L TY+ DA
Sbjct: 218 HADIDEGELSTYMSDYINDA 237
>pdb|2NVA|A Chain A, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|B Chain B, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|C Chain C, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|D Chain D, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|E Chain E, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|F Chain F, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|G Chain G, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
pdb|2NVA|H Chain H, The X-Ray Crystal Structure Of The Paramecium Bursaria
Chlorella Virus Arginine Decarboxylase Bound To Agmatine
Length = 372
Score = 30.0 bits (66), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 33/80 (41%)
Query: 166 HFLDHRNTLDFGVLGAKAGIRFGHVGSHIDSRSVDASPSSITENFDERYGHYGASIGNRL 225
H L++ LD V+G + G R++ +S + E + Y IG L
Sbjct: 158 HLLEYAKQLDIEVIGISFHVGSGSRNPEAYYRAIKSSKEAFNEAISVGHKPYILDIGGGL 217
Query: 226 GSSVPEGNLCTYVDVPYTDA 245
+ + EG L TY+ DA
Sbjct: 218 HADIDEGELSTYMSDYINDA 237
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 30.0 bits (66), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 26/41 (63%), Gaps = 2/41 (4%)
Query: 1115 ICGICNDPPEDAVV-SICGHVFCNQCI-CERLTADDNQCPT 1153
+C IC D DAVV CG+ +C++CI L +D++ CPT
Sbjct: 17 LCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPT 57
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.315 0.132 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 41,713,016
Number of Sequences: 62578
Number of extensions: 1744275
Number of successful extensions: 3633
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 3577
Number of HSP's gapped (non-prelim): 72
length of query: 1433
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1322
effective length of database: 8,027,179
effective search space: 10611930638
effective search space used: 10611930638
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.9 bits)